Tina Graves-Lindsay,  McDonnell Genome Institute

Research Accomplishments & Interests

Tina Graves-Lindsay, M.S., joined the McDonnell Genome Institute in 1996 and is currently the leader of the Reference Genomes group. This group is responsible for improving the human and mouse reference sequences by correcting any misrepresented regions and closing as many remaining gaps as possible. This effort is also producing alternate assemblies of structurally variant loci for the human genome. Along with her duties in the Reference Genome group, she also oversees the Clone-Based Library Core and Sorting groups.

Other Biographical Information

Tina received her Bachelor of Science degree from Southwest Missouri State University and her Master’s Degree in Microbiology from Southern Illinois University at Carbondale.

Publications

title citation publication date
Avian W and mammalian Y chromosomes convergently retained dosage-sensitive regulators. Nat Genet. 2017 Jan 30. doi: 10.1038/ng.3778. [Epub ahead of print] 1970-08-22
Discovery and genotyping of structural variation from long-read haploid genome sequence data. Genome Res. 2016 Nov 28. pii: gr.214007.116. [Epub ahead of print] 2016-11-28
Interchromosomal core duplicons drive both evolutionary instability and disease susceptibility of the Chromosome 8p23.1 region. Genome Res. 2016 Nov;26(11):1453-1467. Epub 2016 Oct 7. 1970-08-22
A genomic case study of mixed fibrolamellar hepatocellular carcinoma. Ann Oncol. 2016 Mar 30. pii: mdw135. [Epub ahead of print] 2016-03-30
The genome of the vervet (Chlorocebus aethiops sabaeus). Genome Res. 2015 Sep 16. pii: gr.192922.115. [Epub ahead of print] 2015-09-16
Sequencing the mouse y chromosome reveals convergent gene acquisition and amplification on both sex chromosomes. Cell. 2014 Nov 6;159(4):800-13. doi: 10.1016/j.cell.2014.09.052. Epub 2014 Oct 30. 2014-11-06
Single haplotype assembly of the human genome from a hydatidiform mole. Genome Res. 2014 Dec;24(12):2066-76. doi: 10.1101/gr.180893.114. Epub 2014 Nov 4. 2014-12-01
Sequencing of the human IG light chain loci from a hydatidiform mole BAC library reveals locus-specific signatures of genetic diversity. Genes Immun. 2014 Oct 23. doi: 10.1038/gene.2014.56. [Epub ahead of print] 2014-10-23
Palindromic GOLGA8 core duplicons promote chromosome 15q13.3 microdeletion and evolutionary instability. Nat Genet. 2014 Oct 19. doi: 10.1038/ng.3120. [Epub ahead of print] 2014-10-19
The common marmoset genome provides insight into primate biology and evolution. Nat Genet. 2014 Jul 20. doi: 10.1038/ng.3042. [Epub ahead of print] 2014-07-20
Finished sequence and assembly of the DUF1220-rich 1q21 region using a haploid human genome. BMC Genomics. 2014 May 20;15:387. doi: 10.1186/1471-2164-15-387. 2014-05-20
Mammalian Y chromosomes retain widely expressed dosage-sensitive regulators. Nature. 2014 Apr 24;508(7497):494-9. doi: 10.1038/nature13206. 2014-04-24
Subtelomeric CTCF and cohesin binding site organization using improved subtelomere assemblies and a novel annotation pipeline. Genome Res. 2014 Mar 27. [Epub ahead of print] 2014-03-27
Reconstructing complex regions of genomes using long-read sequencing technology. Genome Res. 2014 Jan 13. [Epub ahead of print] 2014-01-13
Genomics. Genome project standards in a new era of sequencing. Science. 2009 Oct 9;326(5950):236-7. doi: 10.1126/science.1180614. 2009-10-09
Characterizing the chromosomes of the platypus (Ornithorhynchus anatinus). Chromosome Res. 2007;15(8):961-74. doi: 10.1007/s10577-007-1186-2. Epub 2008 Jan 9. 2007-01-01
Microsatellite discovery from BAC end sequences and genetic mapping to anchor the soybean physical and genetic maps. Genome. 2008 Apr;51(4):294-302. doi: 10.1139/G08-010. 2008-04-01
Higher-order genome organization in platypus and chicken sperm and repositioning of sex chromosomes during mammalian evolution. Chromosoma. 2009 Feb;118(1):53-69. doi: 10.1007/s00412-008-0177-1. Epub 2008 Aug 26. 2009-02-01
The human genome: genes, pseudogenes, and variation on chromosome 7. Cold Spring Harb Symp Quant Biol. 2003;68:13-22. 2003-01-01
Independent specialization of the human and mouse X chromosomes for the male germ line. Nat Genet. 2013 Jul 21. doi: 10.1038/ng.2705. [Epub ahead of print] 2013-07-21
Sequence and analysis of chromosome 4 of the plant Arabidopsis thaliana. Nature. 1999 Dec 16;402(6763):769-77. 1998-12-16
Complete Haplotype Sequence of the Human Immunoglobulin Heavy-Chain Variable, Diversity, and Joining Genes and Characterization of Allelic and Copy-Number Variation. Am J Hum Genet. 2013 Mar 26. pii: S0002-9297(13)00112-2. doi: 10.1016/j.ajhg.2013.03.004. [Epub ahead of print] 2013-03-26
The western painted turtle genome, a model for the evolution of extreme physiological adaptations in a slowly evolving lineage. Genome Biol. 2013 Mar 28;14(3):R28. [Epub ahead of print] 2013-03-18
Lineage-specific biology revealed by a finished genome assembly of the mouse. PLoS Biol. 2009 May 5;7(5):e1000112. doi: 10.1371/journal.pbio.1000112. Epub 2009 May 26. 2009-05-05
Genomic Pathology of SLE-Associated Copy-Number Variation at the FCGR2C/FCGR3B/FCGR2B Locus. Am J Hum Genet. 2012 Dec 19. pii: S0002-9297(12)00626-X. doi: 10.1016/j.ajhg.2012.11.013. [Epub ahead of print] 2012-12-19
Evolution of Human-Specific Neural SRGAP2 Genes by Incomplete Segmental Duplication. Cell. 2012 May 2. [Epub ahead of print] 2012-05-02
Resolving the breakpoints of the 17q21.31 microdeletion syndrome with next-generation sequencing. Am J Hum Genet. 2012 Apr 6;90(4):599-613. 2012-04-06
The evolution of African great ape subtelomeric heterochromatin and the fusion of human chromosome 2 Genome Res. 2012 Mar 14. [Epub ahead of print] 2012-03-14
Insights into hominid evolution from the gorilla genome sequence. Nature. 2012 Mar 7;483(7388):169-75. doi: 10.1038/nature10842. 2012-03-07
Strict evolutionary conservation followed rapid gene loss on human and rhesus Y chromosomes. Nature. 2012 Feb 22. doi: 10.1038/nature10843. [Epub ahead of print] 2012-02-22
A high-resolution map of human evolutionary constraint using 29 mammals. Nature. 2011 Oct 12;478(7370):476-82. doi: 10.1038/nature10530. 2011-10-12
Modernizing reference genome assemblies. PLoS Biol. 2011 Jul;9(7):e1001091. Epub 2011 Jul 5. 2011-07-05
Gorilla genome structural variation reveals evolutionary parallelisms with chimpanzee. Genome Res. 2011 Jul 20. [Epub ahead of print] 2011-06-20
Comparative and demographic analysis of orang-utan genomes Nature. 2011 Jan 27;469(7331):529-33. 2011-01-27
A large and complex structural polymorphism at 16p12.1 underlies microdeletion disease risk. Nat Genet. 2010 Sep;42(9):745-50. Epub 2010 Aug 22. 2010-09-01
A human genome structural variation sequencing resource reveals insights into mutational mechanisms. Cell. 2010 Nov 24;143(5):837-47. 2010-11-24
Convergent evolution of chicken Z and human X chromosomes by expansion and gene acquisition. Nature. 2010 Jul 11. [Epub ahead of print] 2010-07-11
The genome of the Western clawed frog Xenopus tropicalis. Science. 2010 Apr 30;328(5978):633-6. 2010-04-30
Characterization of missing human genome sequences and copy-number polymorphic insertions. Nat Methods. 2010 May;7(5):365-71. 2010-05-01
Gene duplication and fragmentation in the zebra finch major histocompatibility complex. BMC Biol. 2010 Apr 1;8:29. 2010-04-01
The genome of a songbird. Nature. 2010 Apr 1;464(7289):757-62. 2010-04-01
Chimpanzee and human Y chromosomes are remarkably divergent in structure and gene content. Nature. 2010 Jan 28;463(7280):536-9. Epub 2010 Jan 13. 2010-01-13
Detailed analysis of a contiguous 22-Mb region of the maize genome. PLoS Genet. 2009 Nov;5(11):e1000728. Epub 2009 Nov 20. 2009-11-20
The physical and genetic framework of the maize B73 genome. PLoS Genet. 2009 Nov;5(11):e1000715. Epub 2009 Nov 20. 2009-11-20
The B73 maize genome: complexity, diversity, and dynamics. Science. 2009 Nov 20;326(5956):1112-5. 2009-11-20
A burst of segmental duplications in the genome of the African great ape ancestor. Nature. 2009 Feb 12;457(7231):877-81. 2009-02-12
Sequencing human-gibbon breakpoints of synteny reveals mosaic new insertions at rearrangement sites. Genome Res. 2008 Nov 24. [Epub ahead of print] 2008-11-24
Haplotype sorting using human fosmid clone end-sequence pairs. Genome Res. 2008 Oct 6. [Epub ahead of print] 2008-10-06
Evolutionary toggling of the MAPT 17q21.31 inversion region. Nat Genet. 2008 Aug 10. [Epub ahead of print] 2008-08-10
Gene discovery and comparative analysis of X-degenerate genes from the domestic cat Y chromosome. Genomics. 2008 Aug 26. [Epub ahead of print] 2008-08-26
Platypus globin genes and flanking loci suggest a new insertional model for beta-globin evolution in birds and mammals. BMC Biol. 2008 Jul 25;6:34. 2008-07-25
Mapping and sequencing of structural variation from eight human genomes. Nature. 2008 May 1;453(7191):56-64. 2008-05-01
Bird-like sex chromosomes of platypus imply recent origin of mammal sex chromosomes. Genome Res. 2008 Jun;18(6):965-73. Epub 2008 May 7. 2008-05-31
Defensins and the convergent evolution of platypus and reptile venom genes. Genome Res. 2008 Jun;18(6):986-94. Epub 2008 May 7. 2008-06-12
Genome analysis of the platypus reveals unique signatures of evolution. Nature. 2008 May 8;453(7192):175-83. 2008-05-08
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature. 2007 Jun 14;447(7146):799-816. 2007-06-14
Analyses of deep mammalian sequence alignments and constraint predictions for 1% of the human genome. Genome Res. 2007 Jun;17(6):760-74. 2007-06-17
The structure and evolution of centromeric transition regions within the human genome. Nature. 2004 Aug 19;430(7002):857-64. 2004-08-19
Punctuated duplication seeding events during the evolution of human chromosome 2p11. Genome Res. 2005 Jul;15(7):914-27. Epub 2005 Jun 17. 2005-07-10
A genome-wide comparison of recent chimpanzee and human segmental duplications. Nature. 2005 Sep 1;437(7055):88-93. 2005-09-15
Conservation of Y-linked genes during human evolution revealed by comparative sequencing in chimpanzee. Nature. 2005 Sep 1;437(7055):100-3. 2005-09-01
Initial sequence of the chimpanzee genome and comparison with the human genome Nature. 2005 Sep 1;437(7055):69-87. 2005-09-01
A physical map of the chicken genome. Nature. 2004 Dec 9;432(7018):679-80. 2004-12-09
Generation and annotation of the DNA sequences of human chromosomes 2 and 4. Nature. 2005 Apr 7;434(7034):724-31. 2005-04-07
The male-specific region of the human Y chromosome is a mosaic of discrete sequence classes. Nature. 2003 Jun 19;423(6942):825-37. 2003-06-19
Initial sequencing and comparative analysis of the mouse genome. Nature. 2002 Dec 5;420(6915):520-62. 2002-12-05
Surveying Saccharomyces genomes to identify functional elements by comparative DNA sequence analysis. Genome Res. 2001 Jul;11(7):1175-86. 2001-07-01
The DNA sequence of human chromosome 7. Nature. 2003 Jul 10;424(6945):157-64. 2003-07-10
Genome sequence of the nematode C. elegans: a platform for investigating biology. The C. elegans Sequencing Consortium. Science. 1998 Dec 11;282(5396):2012-8. Review. Erratum in: Science 1999 Jan 1;283(5398):35. Science 1999 Mar 26;283(5410):2103. Science 1999 Sep 3;285(5433):1493. 1998-12-10
Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution Nature. 2004 Dec 9;432(7018):695-716. 2004-12-10
Integrated and sequence-ordered BAC- and YAC-based physical maps for the rat genome. Genome Res. 2004 Apr;14(4):766-79. 2004-04-01